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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
395
total RNA-seq
ChIP-seq
113
ATAC-seq
77
single cell RNA-seq
11
snATAC-seq
10
MeRIP-seq
10
WGBS
9
Hi-C
8
DNase-seq
2
Capture-C
2
FAIRE-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
472
Transcription
134
DNA accessibility
10
DNA methylation
9
3D chromatin structure
Target of assay
5
control
5
nucleotide modification
Date released
157
July, 2018
94
August, 2017
57
May, 2021
56
February, 2023
42
November, 2019
40
September, 2018
39
April, 2018
32
February, 2021
24
May, 2022
19
September, 2020
11
March, 2020
10
November, 2020
8
January, 2021
7
August, 2020
7
November, 2018
July, 2019
5
March, 2019
5
October, 2017
5
October, 2019
5
September, 2017
4
August, 2021
4
June, 2019
August, 2018
3
October, 2022
2
October, 2018
1
August, 2022
1
February, 2020
1
June, 2018
Available data
484
bam
455
bigWig
410
tsv
321
fastq
zippedFastqFolder
74
bed narrowPeak
32
bigBed narrowPeak
9
bed broadPeak
8
bed bed3+
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
txt
4
bed bedMethyl
4
bigBed bedMethyl
3
cool
1
bedpe
1
hdf5
Organism
638
Homo sapiens
Biosample type
382
tissue
193
primary cell
64
cell line
Organ
639
pancreas
512
connective tissue
405
adipose tissue
299
epithelium
291
kidney
234
heart
229
liver
159
bone element
122
vasculature
120
blood vessel
104
artery
55
eye
51
limb
50
brain
47
musculature of body
20
lung
18
ureter
16
skeleton
15
embryo
9
blood
9
bodily fluid
8
nerve
5
spleen
5
vein
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
537
AMP
72
HPAP
30
T1D
Genome assembly (visualization)
486
hg19
471
GRCh38
Lab
498
AMP-T2D consortium
72
Klaus Kaestner, Upenn
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
66
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
assay_title!
ChIP-seq
files.file_type!
zippedFastqFolder
month_released!
August, 2018
July, 2019
BIOSAMPLE
ASSAY
639 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
MeRIP-seq
WGBS
Hi-C
DNase-seq
Capture-C
FAIRE-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
278
58
6
7
4
3
1
1
pancreas
2
4
2
1
2
1
1
body of pancreas
1
4
2
4
primary cell
pancreatic alpha cell
52
13
10
6
1
pancreatic beta cell
21
10
12
1
pancreatic acinar cell
4
5
11
1
pancreatic ductal cell
4
4
10
pancreatic delta cell
11
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cell line
EndoC_BH1
33
19
6
1
2
1
Panc1
1
1
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